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LEARNING MATERIALS
Maintenance Notification

CyVerse systems will be unavailable on Tuesday, September 18th, from 7:00am to 5:00pm MST.
Check your local timezone here https://goo.gl/CHqLph

Keep up to date with our maintenance schedules on the CyVerse public calendar
http://www.cyverse.org/maintenance-calendar

ACCESS TO OR USAGE OF THE FOLLOWING SERVICES WILL BE UNAVAILABLE OR DISRUPTED:

Discovery Environment:        7:00am to 5:00pm MST

The Discovery Environment will be unavailable while patches and updates are applied.
        ** Currently running analyses will be terminated. Please plan accordingly.

DataStore                    
7:00am to 5:00pm MST
The DataStore will be unavailable during the maintenance period.

Atmosphere                    7:00am to 5:00pm MST
Atmosphere instances will continue to run.
Commonly-used images will be available for launching instances, but users will be unable to create new images, or launch instances from rarely-used images, while we perform Atmosphere and DataStore maintenance.

User Portal                   7:00am to 5:00pm MST
The User Portal, http://user.cyverse.org, will be unavailable while we perform maintenance and updates.

Agave/Science API             7:00am to 5:00pm MST
The Agave/Science API will be unavailable during this maintenance period.


Please contact suppport@cyverse.org for any questions, or concerns.

 

 

 

 

 

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  • Only submission package folders have metadata. Do not add metadata to the sequence files

  • Use the Metadata Term Guide in the DE for explanations of each metadata term. The guide is located within each template.

  • Three metadata templates will be used to add metadata to the submission package: BioProject, BioSample, and Library.
    • For the BioProject Folder, select the NCBI BioProject Creation WGS metadata template.
    • For the BioSample Folder(s), select the  NCBI BioSample - Plant WGS metadata template.
    • For the Library Folder(s), select the NCBI WGS Library metadata template.
  • If you plan to add metadata to a large number of BioSamples and/or Libraries, see the documentation for adding metadata templates in bulk.
  • When entering a contact email on the BioProject metadata template, you must enter the email address associated with your NCBI account in order to receive WGS email notifications on the status of your submission.
  • See http://www.ncbi.nlm.nih.gov/biosample/docs/packages/ for help determining the appropriate BioSample type for your data.

  • Use the TEST - NCBI_WGS_Submit DE app to validate the metadata file. For validation, the app will attempt to create a submission.xml metadata file for use by the WGS system, based on the metadata entered into the templates. 

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Step 6: Submit to WGS

Run the TEST - NCBI_WGS_Submit app to submit to the WGS. Make sure you uncheck the Validate metdata file only checkbox. The app will both create the submission.xml metadata file and transfer all sequence files to the WGS.

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